Question: Meaning of the header in secondary structure of protein?
0
gravatar for Bioinformatics313
22 months ago by
USA,CO
Bioinformatics3130 wrote:

I download Secondary Structure Files from https://www.rcsb.org/pdb/static.do?p=download/http/index.html#ss. I want to know what does it mean the letter after PDB code in the secondary structure(header)?

>102L:A:secstr
  HHHHHHHHH  EEEEEE TTS EEEETTEEEESSS TTTHHHHHHHHHHTS  TTB  HHHHHHHHHHHHHHH
HHHHHH TTHHHHHHHS HHHHHHHHHHHHHHHHHHHHT HHHHHHHHTT HHHHHHHHHSSHHHHHSHHHHHHH
HHHHHHSSSGGG

I mean the letter 'A' in this case. Thanks.

ADD COMMENTlink modified 22 months ago • written 22 months ago by Bioinformatics3130

Help for secondary structure files is on this page.

ADD REPLYlink written 22 months ago by genomax85k

Thanks for your reply. I read this link and many others, but I did not get the answer.

ADD REPLYlink written 22 months ago by Bioinformatics3130
3
gravatar for RamRS
22 months ago by
RamRS27k
Houston, TX
RamRS27k wrote:

PDB identifiers usually consist of the 4-length alphanumeric identifier and the protein chain. I'm guessing 102L is the PDB identifier and A is the protein chain.

ADD COMMENTlink written 22 months ago by RamRS27k

Thanks I appreciate your answer . I understand it can be the chain of the protein, but I was confused because some the secondary structure in the file has different chain of protein with the same PDB id.

ADD REPLYlink written 22 months ago by Bioinformatics3130
1

Yes, a protein can have multiple chains, and these chains can have different sequences of secondary structure elements.

ADD REPLYlink written 22 months ago by RamRS27k

Thanks man. I really appreciate your answer .

ADD REPLYlink written 22 months ago by Bioinformatics3130

No problem - if the answer resolved your question, can you accept it please?

Upvote|Bookmark|Accept

ADD REPLYlink written 22 months ago by RamRS27k
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